Pacbio Ccs Vs Subreads Explained ?
0
4
Entering edit mode
8.2 years ago

Hi guys,

I've been trying to understand PacBio data for a while now, I think that it's the way forward for our lab. I'm still having trouble understanding CCS though - my biology is quite shaky.

  1. Could someone explain to a computer scientist - how does PacBio get its CCS from the subreads or long reads ?

  2. Our collaborators with the PacBio data gave us a set of files - with subreads.fastq, CCS.fastq and long_reads.fastq. When I ran a FASTQC report for subreads, I got base quality scores of around 10-15, whereas with CCS I got a larger variation for quality scores with values between 30-40. Is this expected ?

  3. Which of these files should I use to perform assembly ? I'm guessing it's CCS.fastq

Thanks for your help!

• 14k views
ADD COMMENT
2
Entering edit mode

You asked the same question at seqanswers, where it was answered nicely. See http://seqanswers.com/forums/showthread.php?t=34790

ADD REPLY
0
Entering edit mode

Question was helpful. Thank you.

ADD REPLY

Login before adding your answer.

Traffic: 2021 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6